microbiomeDataSets

DOI: 10.18129/B9.bioc.microbiomeDataSets  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see microbiomeDataSets.

Experiment Hub based microbiome datasets

Bioconductor version: 3.17

microbiomeDataSets is a collection of microbiome datasets loaded from Bioconductor'S ExperimentHub infrastructure. The datasets serve as reference for workflows and vignettes published adjacent to the microbiome analysis tools on Bioconductor. Additional datasets can be added overtime and additions from authors are welcome.

Author: Leo Lahti [cre, aut] , Felix G.M. Ernst [aut] , Sudarshan Shetty [aut] , Chouaib Benchraka [ctb] , Yagmur Simsek [ctb]

Maintainer: Leo Lahti <leo.lahti at iki.fi>

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("microbiomeDataSets")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("microbiomeDataSets")

 

HTML	R Script	microbiomeDataSets
PDF		Reference Manual
Text		NEWS

Details

biocViews	ExperimentData, ExperimentHub, MicrobiomeData, SequencingData
Version	1.8.0
License	CC0
Depends	R (>= 4.1), SummarizedExperiment, TreeSummarizedExperiment, MultiAssayExperiment
Imports	methods, utils, BiocGenerics, ExperimentHub, Biostrings, ape
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle, SingleCellExperiment, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	mia, miaViz
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	microbiomeDataSets_1.8.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/microbiomeDataSets
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/microbiomeDataSets
Package Short Url	https://bioconductor.org/packages/microbiomeDataSets/
Package Downloads Report	Download Stats